Query psy5811
Match_columns 329
No_of_seqs 264 out of 1298
Neff 7.0
Searched_HMMs 46136
Date Fri Aug 16 18:36:36 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5811.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5811hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3643|consensus 100.0 1.3E-38 2.7E-43 305.8 8.6 186 65-252 120-324 (459)
2 KOG3644|consensus 100.0 2.3E-36 5E-41 299.3 7.3 187 64-252 129-333 (457)
3 TIGR00860 LIC Cation transport 100.0 5.8E-33 1.3E-37 277.8 12.0 178 67-253 118-298 (459)
4 KOG3642|consensus 100.0 5.3E-33 1.2E-37 268.5 5.1 185 65-252 128-332 (466)
5 KOG3646|consensus 100.0 1.5E-31 3.2E-36 258.1 4.4 169 81-257 126-298 (486)
6 KOG3645|consensus 100.0 2.3E-30 4.9E-35 258.5 11.8 171 81-259 129-305 (449)
7 PF02931 Neur_chan_LBD: Neurot 99.7 2.5E-17 5.3E-22 148.5 14.1 108 81-188 101-217 (217)
8 PF02932 Neur_chan_memb: Neuro 98.6 9.9E-11 2.1E-15 101.9 -13.2 42 195-236 1-42 (237)
9 TIGR00927 2A1904 K+-dependent 93.1 0.014 3E-07 62.9 -2.1 23 190-212 933-955 (1096)
10 TIGR00927 2A1904 K+-dependent 92.1 0.022 4.8E-07 61.4 -2.1 9 223-231 1067-1075(1096)
11 PF03066 Nucleoplasmin: Nucleo 91.8 0.062 1.3E-06 46.2 0.7 9 19-27 101-109 (149)
12 PF10446 DUF2457: Protein of u 86.5 0.22 4.8E-06 49.5 0.2 38 92-129 121-160 (458)
13 PF10446 DUF2457: Protein of u 85.0 0.18 4E-06 50.1 -1.2 7 24-30 25-31 (458)
14 KOG0772|consensus 78.0 0.52 1.1E-05 47.8 -0.9 74 61-135 146-230 (641)
15 KOG4156|consensus 76.3 0.88 1.9E-05 47.3 0.2 6 294-299 890-895 (1329)
16 KOG4156|consensus 72.8 0.72 1.6E-05 47.9 -1.4 7 153-159 774-780 (1329)
17 KOG1834|consensus 71.0 0.57 1.2E-05 48.8 -2.6 9 27-35 881-889 (952)
18 PF14494 DUF4436: Domain of un 67.3 6.3 0.00014 37.0 3.6 92 107-213 96-188 (256)
19 PF03896 TRAP_alpha: Transloco 64.2 0.95 2.1E-05 43.0 -2.5 11 65-75 74-84 (285)
20 KOG0338|consensus 63.2 2.7 5.8E-05 43.1 0.3 20 300-319 408-427 (691)
21 PF02459 Adeno_terminal: Adeno 58.2 1.3 2.8E-05 45.2 -2.8 39 278-316 500-538 (548)
22 PF15470 DUF4637: Domain of un 50.3 3.6 7.7E-05 35.0 -1.0 7 92-98 66-72 (173)
23 PF02459 Adeno_terminal: Adeno 49.5 1.7 3.8E-05 44.3 -3.5 10 65-74 347-356 (548)
24 KOG2457|consensus 48.5 4.4 9.6E-05 40.0 -0.8 6 295-300 413-418 (555)
25 PF03896 TRAP_alpha: Transloco 46.9 2.3 5.1E-05 40.4 -2.9 6 88-93 107-112 (285)
26 KOG0127|consensus 46.2 6.1 0.00013 40.6 -0.3 10 109-118 296-305 (678)
27 PHA03171 UL37 tegument protein 44.1 5.3 0.00012 39.5 -1.0 8 117-124 217-224 (499)
28 COG1614 CdhC CO dehydrogenase/ 42.0 13 0.00028 36.2 1.2 7 13-19 327-333 (470)
29 KOG0699|consensus 40.8 5 0.00011 39.4 -1.7 6 193-198 410-415 (542)
30 PF04712 Radial_spoke: Radial 38.1 7.6 0.00017 39.8 -1.0 12 88-99 343-354 (491)
31 PTZ00248 eukaryotic translatio 32.9 7.3 0.00016 37.7 -2.0 6 12-17 260-265 (319)
32 PF04147 Nop14: Nop14-like fam 32.6 6.8 0.00015 42.8 -2.6 13 98-110 416-428 (840)
33 PF04712 Radial_spoke: Radial 32.1 12 0.00026 38.3 -0.7 20 118-138 436-455 (491)
34 PF08553 VID27: VID27 cytoplas 32.0 17 0.00037 39.4 0.4 12 240-251 639-650 (794)
35 PF04147 Nop14: Nop14-like fam 31.9 7.3 0.00016 42.6 -2.5 9 305-313 675-683 (840)
36 PF02724 CDC45: CDC45-like pro 30.8 9.1 0.0002 40.4 -1.9 29 179-211 303-331 (622)
37 PF01056 Myc_N: Myc amino-term 30.6 17 0.00036 35.4 0.0 11 62-72 242-252 (329)
38 PHA03171 UL37 tegument protein 29.5 17 0.00038 36.0 -0.1 10 24-33 58-67 (499)
39 KOG2395|consensus 28.8 27 0.00059 36.0 1.2 12 240-251 492-503 (644)
40 PF15017 AF1Q: Drug resistance 25.7 9.9 0.00021 29.7 -2.0 10 61-70 70-79 (87)
41 COG5167 VID27 Protein involved 25.2 31 0.00067 35.6 0.8 14 83-96 428-441 (776)
42 PF03115 Astro_capsid: Astrovi 24.8 25 0.00054 38.2 0.0 14 110-123 732-745 (787)
43 PF04874 Mak16: Mak16 protein 23.3 9.1 0.0002 30.7 -2.7 7 8-14 36-42 (101)
44 KOG0299|consensus 23.1 28 0.00062 35.0 0.1 10 90-99 115-124 (479)
45 PF00183 HSP90: Hsp90 protein; 22.9 11 0.00024 39.1 -3.0 40 84-125 124-163 (531)
46 KOG2153|consensus 22.9 19 0.00041 37.9 -1.2 11 308-318 457-467 (704)
47 KOG3803|consensus 22.6 35 0.00077 35.9 0.7 18 196-213 371-388 (968)
48 KOG1144|consensus 22.1 98 0.0021 33.7 3.7 15 279-293 593-607 (1064)
49 PF03153 TFIIA: Transcription 21.7 1E+02 0.0022 30.2 3.6 95 27-137 273-367 (375)
50 KOG4264|consensus 21.7 9.8 0.00021 38.9 -3.4 19 297-315 443-461 (694)
51 PF00183 HSP90: Hsp90 protein; 21.2 26 0.00055 36.4 -0.7 7 15-21 19-25 (531)
52 PF14153 Spore_coat_CotO: Spor 21.2 1.6E+02 0.0035 26.2 4.5 14 81-94 133-146 (185)
53 PF08553 VID27: VID27 cytoplas 21.1 26 0.00056 38.1 -0.7 11 150-160 515-525 (794)
54 KOG4364|consensus 21.0 14 0.00031 38.9 -2.5 38 32-69 523-561 (811)
55 KOG4101|consensus 20.9 77 0.0017 27.1 2.2 14 84-97 38-51 (175)
No 1
>KOG3643|consensus
Probab=100.00 E-value=1.3e-38 Score=305.76 Aligned_cols=186 Identities=33% Similarity=0.658 Sum_probs=177.1
Q ss_pred eeeecCccccccccccCCCceEEEeeCCeEEEEeccccccccccccCCCCcceeeEeeeeecccccccceEeeecC-CCc
Q psy5811 65 EFYTKSPKCLELMLQCSPRASILLINMALTLFCFRLTLTATCKMFLRKFPFDTQTCPLLVGSFGYTSNDVKYKWQS-ETP 143 (329)
Q Consensus 65 E~~t~s~~s~~~~~~~~~~~~v~V~~dG~V~~~~r~~~~~~C~mdl~~FPFD~Q~C~L~f~S~~y~~~ev~l~~~~-~~~ 143 (329)
.|+.|+||+..|..+ ..|..++|++||+|+|+.|++.++.|+|||++||+|+|+|+|.+.||+|+.++|.+.|.. ++.
T Consensus 120 Tff~N~KkSf~H~~T-~~N~~lRl~~dGtVlys~RlT~Ta~C~MDL~~fPmD~Q~C~LeiESYGYt~~DI~y~W~~g~~a 198 (459)
T KOG3643|consen 120 TFFPNSKKSFFHDVT-THNSLLRLHPDGTVLYSIRLTVTAACPMDLKLFPMDSQNCKLEIESYGYTTDDIEYYWSKGDNA 198 (459)
T ss_pred eecccCcccccceee-ecceEEEEcCCCeEEEEEEEEEEEecccccccCCCcccceeEEEEecccccccEEEEEcCCCcc
Confidence 899999999998886 899999999999999999999999999999999999999999999999999999999987 457
Q ss_pred eeecccccccceeeeeeEEEEeEEeeecCCceeeEEEEEEEEeccceeeEeecchhHHHHhhhheeeeccCCCCCCeEEE
Q psy5811 144 VDIEHGLELAQYALVNMTAIKNKLVTIGNDVHSIIQINFQLKRNTGFFVLQTYVPCSLMVCSSWVSFWIDPDAVPARVSL 223 (329)
Q Consensus 144 v~~~~~~~~~eW~l~~~~~~~~~~~~~~~g~ys~l~~~~~LkR~~~~yi~~iilP~~llvlLs~lsFwlp~~s~geRisl 223 (329)
+.......++++.+.+.........+ .+|.|+++.+.|.|+|+.+||++++++|+++++++||++|||..+++++|+++
T Consensus 199 v~~~e~i~LpqFti~~~~~~s~~~~~-sTG~Y~RL~l~F~l~Rnigf~ilQ~y~PS~LiVilSWVSFWin~~a~pARv~l 277 (459)
T KOG3643|consen 199 VKGDEKIELPQFTITEYHVTSRLVSF-STGNYSRLSLSFQLRRNIGFYILQTYIPSTLIVILSWVSFWINRDASPARVAL 277 (459)
T ss_pred ccceeeeeccceEEEEEEEEEEEEEE-ccccceeEEEEEEEEeeccEEEEeeecchhhhhHHhHhHhhhccccchhheee
Confidence 77777899999999999999998888 79999999999999999999999999999999999999999999999999999
Q ss_pred EEeeehhhhhhcccc------------------eEEEEeecCcCCCC
Q psy5811 224 DVDKQIKQWCRIENN------------------ISYLVLYPSLAPYT 252 (329)
Q Consensus 224 giT~LLs~t~~~~~~------------------v~~l~v~~~llp~t 252 (329)
|||++|+||+++.+. +||++||+++++.+
T Consensus 278 GITTVLTMTTl~t~~n~slPrvSYVKAiDiYL~vCFvfVF~sLLEYA 324 (459)
T KOG3643|consen 278 GITTVLTMTTLMTSTNESLPRVSYVKAIDVYLGVCFVFVFLSLLEYA 324 (459)
T ss_pred ceehHHhHHHHHhhhhccCCCccceeeehhhhhHHHHHHHHHHHHHH
Confidence 999999999998652 69999999999998
No 2
>KOG3644|consensus
Probab=100.00 E-value=2.3e-36 Score=299.27 Aligned_cols=187 Identities=30% Similarity=0.620 Sum_probs=177.9
Q ss_pred ceeeecCccccccccccCCCceEEEeeCCeEEEEeccccccccccccCCCCcceeeEeeeeecccccccceEeeecCCCc
Q psy5811 64 EEFYTKSPKCLELMLQCSPRASILLINMALTLFCFRLTLTATCKMFLRKFPFDTQTCPLLVGSFGYTSNDVKYKWQSETP 143 (329)
Q Consensus 64 ~E~~t~s~~s~~~~~~~~~~~~v~V~~dG~V~~~~r~~~~~~C~mdl~~FPFD~Q~C~L~f~S~~y~~~ev~l~~~~~~~ 143 (329)
.-+|.|+|.+.-|... .+|..+.|++||+|++..|+.++.+|+||+.+||+|+|+|.|.+.||+|+.++|.+.|...++
T Consensus 129 d~~F~NsK~a~~H~~~-~~N~ll~I~pnGtV~~~~Ri~l~~~C~m~L~~fP~D~Q~C~l~~eSy~Yn~~~v~~~W~~~~p 207 (457)
T KOG3644|consen 129 DTFFANSKSAEFHKST-KPNVLLMIFPNGTVWYSYRISLTLPCNMDLSKFPMDSQECKLQLESYAYNTDDVRLEWKEWNP 207 (457)
T ss_pred ceeeecccceeeecCC-CCceEEEEecCCeEEEEEEEEEeeceeeehhhCCCccceeeEEEEEeccccceEEEEecCCCC
Confidence 4789999999988886 999999999999999999999999999999999999999999999999999999999999778
Q ss_pred eeecccccccceeeeeeEEEEeEEeeecCCceeeEEEEEEEEeccceeeEeecchhHHHHhhhheeeeccCCCCCCeEEE
Q psy5811 144 VDIEHGLELAQYALVNMTAIKNKLVTIGNDVHSIIQINFQLKRNTGFFVLQTYVPCSLMVCSSWVSFWIDPDAVPARVSL 223 (329)
Q Consensus 144 v~~~~~~~~~eW~l~~~~~~~~~~~~~~~g~ys~l~~~~~LkR~~~~yi~~iilP~~llvlLs~lsFwlp~~s~geRisl 223 (329)
+...+.+..+++.+.+.+...+...| ..|.|++++++|+++|+.+||+++.|+|+.+++++||++|||+++++++|++|
T Consensus 208 v~~~~~i~LPdf~l~~~~~~~~~~~y-~~G~~scL~v~~~f~R~~g~yllQ~YiPT~l~ViiSWvSFWLd~~A~PARv~L 286 (457)
T KOG3644|consen 208 VQVKKDIKLPDFSLPSFSTEKCTGSY-TTGVYSCLRVTFTFKRRYGYYLLQTYIPTLLIVIISWVSFWLDPKAVPARVTL 286 (457)
T ss_pred cccccCccCCceeccceeeccccccc-cCcceEEEEEEEEEEEeehhhhhHHHhhhHhhhhhhhhheecCCCcccceEEe
Confidence 99888999999999999988888777 69999999999999999999999999999999999999999999999999999
Q ss_pred EEeeehhhhhhcccc------------------eEEEEeecCcCCCC
Q psy5811 224 DVDKQIKQWCRIENN------------------ISYLVLYPSLAPYT 252 (329)
Q Consensus 224 giT~LLs~t~~~~~~------------------v~~l~v~~~llp~t 252 (329)
|+|+||+|+++.++. +|+.|||+++++++
T Consensus 287 gvtsLLtLttq~~~i~~~LP~VSYvKAIDVWm~~C~~FIF~sLlE~A 333 (457)
T KOG3644|consen 287 GVTSLLTLTTQSGGIRRNLPKVSYVKAIDVWMGVCMTFIFGSLLELA 333 (457)
T ss_pred hHHHHHHHHHHhcchhhcCCchhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999998762 58899999999999
No 3
>TIGR00860 LIC Cation transporter family protein. selective while glycine receptors are anion selective).
Probab=100.00 E-value=5.8e-33 Score=277.82 Aligned_cols=178 Identities=29% Similarity=0.506 Sum_probs=146.9
Q ss_pred eecCccccccccccCCCceEEEeeCCeEEEEeccccccccccccCCCCcceeeEeeeeecccccccceEeeecCCCce--
Q psy5811 67 YTKSPKCLELMLQCSPRASILLINMALTLFCFRLTLTATCKMFLRKFPFDTQTCPLLVGSFGYTSNDVKYKWQSETPV-- 144 (329)
Q Consensus 67 ~t~s~~s~~~~~~~~~~~~v~V~~dG~V~~~~r~~~~~~C~mdl~~FPFD~Q~C~L~f~S~~y~~~ev~l~~~~~~~v-- 144 (329)
+.|++.+..+.. ...+..+++++||+|.|.+|+.+++.|+||+++||||+|+|+|+|+||+|+.+++.+.|...+.+
T Consensus 118 l~N~~~~~~~~~-~~~~~~v~~~~~G~V~~~~~~~~~~~C~~d~~~FPfD~Q~C~l~fgSw~y~~~~i~l~~~~~~~v~~ 196 (459)
T TIGR00860 118 FYNEKDARFHGI-TMTNVLVRIHPNGSVLYSPRITLTLACPMDLRNFPFDVQNCSLKFESWGYTTNDIKLEWKEQGAVQV 196 (459)
T ss_pred eecCcccccccc-ccCceEEEEcCCCcEEEecCceEEecccceeccCCCCCccccEEEhhhccccceEEEEECCCCceEe
Confidence 445555433222 23445555566999999999999999999999999999999999999999999999999763333
Q ss_pred eecccccccceeeeeeEEEEeEEeee-cCCceeeEEEEEEEEeccceeeEeecchhHHHHhhhheeeeccCCCCCCeEEE
Q psy5811 145 DIEHGLELAQYALVNMTAIKNKLVTI-GNDVHSIIQINFQLKRNTGFFVLQTYVPCSLMVCSSWVSFWIDPDAVPARVSL 223 (329)
Q Consensus 145 ~~~~~~~~~eW~l~~~~~~~~~~~~~-~~g~ys~l~~~~~LkR~~~~yi~~iilP~~llvlLs~lsFwlp~~s~geRisl 223 (329)
+.+.+..++||++.+....... .+. +.+.|+++.++|+++|+++||++++++|++++++++|++||+|+++.|+|++|
T Consensus 197 ~~~~~~~~~eW~l~~~~~~~~~-~~~~~~~~y~~l~~~~~l~R~~~~y~~~l~iP~~li~~ls~~sF~Lp~~a~~eRi~L 275 (459)
T TIGR00860 197 DDSLFISLPEFELLGVYGTRYC-TSETNTGEYPCLTFSFVLRRRPLYYLLQLYIPSILIVILSWVSFWLPADASGARVSL 275 (459)
T ss_pred chhhccccCceEEEeeeeeeeE-ecccCCCCcCeEEEEEEEEEcccceeeeehHHHHHHHHHhheeEecCCCCCCCcEEE
Confidence 3334558999999996655544 333 78899999999999999999999999999999999999999999966999999
Q ss_pred EEeeehhhhhhcccceEEEEeecCcCCCCC
Q psy5811 224 DVDKQIKQWCRIENNISYLVLYPSLAPYTN 253 (329)
Q Consensus 224 giT~LLs~t~~~~~~v~~l~v~~~llp~ts 253 (329)
|+|+||++ ++|++++++.+|.++
T Consensus 276 ~it~lLs~-------~vf~~~v~~~lP~~S 298 (459)
T TIGR00860 276 GITTLLTM-------TTFSSGVRESLPAVS 298 (459)
T ss_pred EEEHHHHH-------HHHHHHHHhhCCCcc
Confidence 99999999 577777777777765
No 4
>KOG3642|consensus
Probab=99.97 E-value=5.3e-33 Score=268.46 Aligned_cols=185 Identities=30% Similarity=0.684 Sum_probs=173.0
Q ss_pred eeeecCccccccccccCCCceEEEeeCCeEEEEeccccccccccccCCCCcceeeEeeeeecccccccceEeeecCCCce
Q psy5811 65 EFYTKSPKCLELMLQCSPRASILLINMALTLFCFRLTLTATCKMFLRKFPFDTQTCPLLVGSFGYTSNDVKYKWQSETPV 144 (329)
Q Consensus 65 E~~t~s~~s~~~~~~~~~~~~v~V~~dG~V~~~~r~~~~~~C~mdl~~FPFD~Q~C~L~f~S~~y~~~ev~l~~~~~~~v 144 (329)
.+|.|++++..|.++ +||..++|+.||+|.|+.|++..+.|+|++.+||+|.|.|++.|+|++|+.+++.+.|.. ..+
T Consensus 128 TfF~NgkkS~~H~iT-~pN~l~Ri~~dG~vlyt~RlTi~A~C~m~l~~fPMD~haCpl~fgSy~Y~~~evvY~W~~-~~V 205 (466)
T KOG3642|consen 128 TFFRNGKKSYAHNIT-TPNKLVRIYIDGTVLYTMRLTIPAECPMHLARFPMDSHACPLKFGSYAYPGSEVVYKWKK-RSV 205 (466)
T ss_pred cccccCcccceeecc-CCCceEEEeECCcceEEEEEeecccCcchhhcCCCCcccCcceecccCcCCCCEEEEEec-ccE
Confidence 789999999999997 999999999999999999999999999999999999999999999999999999999987 555
Q ss_pred eecc--cccccceeeeeeEEEEeEEeeecCCceeeEEEEEEEEeccceeeEeecchhHHHHhhhheeeeccCCCCCCeEE
Q psy5811 145 DIEH--GLELAQYALVNMTAIKNKLVTIGNDVHSIIQINFQLKRNTGFFVLQTYVPCSLMVCSSWVSFWIDPDAVPARVS 222 (329)
Q Consensus 145 ~~~~--~~~~~eW~l~~~~~~~~~~~~~~~g~ys~l~~~~~LkR~~~~yi~~iilP~~llvlLs~lsFwlp~~s~geRis 222 (329)
.+.. .+.+.++++.+.+........ ..|.|+.+.+.|+|+|+.+||++++++||+++++|||++||+..+++++|.+
T Consensus 206 eV~~~~~~~L~Qf~l~g~~~~te~i~t-~~gey~vmtv~F~L~R~~GYf~iQ~YlPC~ltViLSwVSFWinrEs~paRt~ 284 (466)
T KOG3642|consen 206 EVNETDSWSLDQFDLLGVSVGTEDIKT-SSGEYSVMTVYFHLSRRQGYFIIQIYLPCILTVVLSWVSFWINREATPARTS 284 (466)
T ss_pred EEcCCCCccccceeeecccccccceEe-cCCCEEEEEEEEeccceeeEEEEeeccceeeeeeeeeeehhcccccccccee
Confidence 5544 447999999999999888777 8999999999999999999999999999999999999999999999999999
Q ss_pred EEEeeehhhhhhccc------------------ceEEEEeecCcCCCC
Q psy5811 223 LDVDKQIKQWCRIEN------------------NISYLVLYPSLAPYT 252 (329)
Q Consensus 223 lgiT~LLs~t~~~~~------------------~v~~l~v~~~llp~t 252 (329)
||||++|+|+++... -+||+|+|+.+++.+
T Consensus 285 lGITtVLTMTtLs~~aR~slPKVsy~TAmD~fIavCf~FvFsaliEfa 332 (466)
T KOG3642|consen 285 LGITTVLTMTTLSTSARKSLPKVSYATALDVFIAVCFIFVFAALVEFA 332 (466)
T ss_pred eeeeeeeeeeeeeehhccCCCccccchhHHHHHHHHHHHHHHHHHHHH
Confidence 999999999988543 169999999999998
No 5
>KOG3646|consensus
Probab=99.97 E-value=1.5e-31 Score=258.12 Aligned_cols=169 Identities=18% Similarity=0.336 Sum_probs=155.2
Q ss_pred CCCceEEEeeCCeEEEEeccccccccccccCCCCcceeeEeeeeecccccccceEeeecC-CCceeecccccccceeeee
Q psy5811 81 SPRASILLINMALTLFCFRLTLTATCKMFLRKFPFDTQTCPLLVGSFGYTSNDVKYKWQS-ETPVDIEHGLELAQYALVN 159 (329)
Q Consensus 81 ~~~~~v~V~~dG~V~~~~r~~~~~~C~mdl~~FPFD~Q~C~L~f~S~~y~~~ev~l~~~~-~~~v~~~~~~~~~eW~l~~ 159 (329)
.=.++++|++||.|.|.+|..++++|.+|++.||||.|.|.++||||+|++..+.++... ...++.+.+..|+||++.+
T Consensus 126 Ty~tN~Vv~~tG~v~~vPPGIfk~sCkiDItwFPFD~Q~C~mKFGSWTY~G~~lDL~~~~~~g~~Dls~yi~NGEW~Ll~ 205 (486)
T KOG3646|consen 126 TYKTNYVVYSTGSVLWVPPGIFKSSCKIDITWFPFDDQVCYLKFGSWTYAGILLDLRIDDEDGGIDLSTYIPNGEWDLLG 205 (486)
T ss_pred cceeeEEEccCCeeeecCCceeeeeeEEEEEEecccccEEEEEeeeEEEcceeeeeeeccccCCcchhhcccCCceeecc
Confidence 345889999999999999999999999999999999999999999999999999998766 3457888999999999999
Q ss_pred eEEEEeEEeee-cCCceeeEEEEEEEEeccceeeEeecchhHHHHhhhheeeeccCCCCCCeEEEEEeeehhhhhhcccc
Q psy5811 160 MTAIKNKLVTI-GNDVHSIIQINFQLKRNTGFFVLQTYVPCSLMVCSSWVSFWIDPDAVPARVSLDVDKQIKQWCRIENN 238 (329)
Q Consensus 160 ~~~~~~~~~~~-~~g~ys~l~~~~~LkR~~~~yi~~iilP~~llvlLs~lsFwlp~~s~geRislgiT~LLs~t~~~~~~ 238 (329)
..+.+....|. |..+|+.+.|+++++|+.+||.+++++|++++.++++++|-+|+|+ |+|+++++|++|++
T Consensus 206 ~pakr~~~~y~cC~epY~dv~F~l~irRRTLyYgfNlIiP~lLIs~m~lLgFtlppD~-gEKitL~iTilLsv------- 277 (486)
T KOG3646|consen 206 TPAKREEKTYDCCPEPYPDVTFYLHIRRRTLYYGFNLIIPSLLISLMSLLGFTLPPDA-GEKITLQITILLSV------- 277 (486)
T ss_pred ccccceeeecccCCCCcceeEEEEEEEehhhHHHHHHHHHHHHHHHHHHhccccCccc-cceeeeeeehHHHH-------
Confidence 99999988887 6889999999999999999999999999999999999999999999 99999999999999
Q ss_pred eEEEEeecCcCCCCC--CCCC
Q psy5811 239 ISYLVLYPSLAPYTN--GPPR 257 (329)
Q Consensus 239 v~~l~v~~~llp~ts--~~~~ 257 (329)
.+|+-+++++.|.+| .|++
T Consensus 278 c~FL~mvse~~PpTSeaVPll 298 (486)
T KOG3646|consen 278 CFFLTMVSEMTPPTSEAVPLL 298 (486)
T ss_pred HHHHHHHHhhcCCccccccHH
Confidence 477777788888774 4554
No 6
>KOG3645|consensus
Probab=99.97 E-value=2.3e-30 Score=258.46 Aligned_cols=171 Identities=20% Similarity=0.397 Sum_probs=152.7
Q ss_pred CCCceEEEeeCCeEEEEeccccccccccccCCCCcceeeEeeeeecccccccceE-eeecCCCc--eeecccccccceee
Q psy5811 81 SPRASILLINMALTLFCFRLTLTATCKMFLRKFPFDTQTCPLLVGSFGYTSNDVK-YKWQSETP--VDIEHGLELAQYAL 157 (329)
Q Consensus 81 ~~~~~v~V~~dG~V~~~~r~~~~~~C~mdl~~FPFD~Q~C~L~f~S~~y~~~ev~-l~~~~~~~--v~~~~~~~~~eW~l 157 (329)
...+++.|+++|+|.|.+++.++++|++|+++||||.|+|.++|+||.|+..++. +.... .. .+..++..++||++
T Consensus 129 ~~~~~v~v~~~G~V~~~~p~i~~s~C~idv~~FPfD~Q~C~i~f~sw~~~~~~i~~~~~~~-~~~~~~~~~~~~n~eW~l 207 (449)
T KOG3645|consen 129 EDLTNVLVTYTGEVLWYPPAIYKSSCPIDVTYFPFDVQNCSIKFGSWTYDGSEVDGLDLNA-QTIEVDLSDFIENSEWEL 207 (449)
T ss_pred cccceEEEEECCEEEEEcceEEEeecccccccCCCcceeEeEEEeccccCccccceeeecc-ccccCCHHHcCCCCcEEE
Confidence 3446699999999999999999999999999999999999999999999999876 55443 33 67778899999999
Q ss_pred eeeEEEEeEEeee-cCCceeeEEEEEEEEeccceeeEeecchhHHHHhhhheeeeccCCCCCCeEEEEEeeehhhhhhcc
Q psy5811 158 VNMTAIKNKLVTI-GNDVHSIIQINFQLKRNTGFFVLQTYVPCSLMVCSSWVSFWIDPDAVPARVSLDVDKQIKQWCRIE 236 (329)
Q Consensus 158 ~~~~~~~~~~~~~-~~g~ys~l~~~~~LkR~~~~yi~~iilP~~llvlLs~lsFwlp~~s~geRislgiT~LLs~t~~~~ 236 (329)
.+.........+. +.+.|+.+.|.+++||+|+||++++++||+++.++++++||+|++..++|+++|+|+||+|+
T Consensus 208 ~~~~~~~~~~~~~~~~~~~~~i~f~l~irRkplyY~v~liiP~~lis~l~il~fflp~~~~~eki~L~it~Ll~~t---- 283 (449)
T KOG3645|consen 208 LSVTVVREEKKYDCCPGPYSDITFTITIRRKPLYYTVNLIIPCFLISFLSILGFFLPSDSGTEKVTLGITVLLAMT---- 283 (449)
T ss_pred EeeeeEEeecccCCCCCceeEEEEEEEEEeccceEEEehhhhHHHHHHHHhheEEccCCCCCceEEEEHHHHHHHH----
Confidence 9999998887764 56779999999999999999999999999999999999999998884599999999999994
Q ss_pred cceEEEEeecCcCCCCCC--CCCCc
Q psy5811 237 NNISYLVLYPSLAPYTNG--PPRGL 259 (329)
Q Consensus 237 ~~v~~l~v~~~llp~ts~--~~~g~ 259 (329)
++++++++.+|.++. |++|+
T Consensus 284 ---v~ll~vs~~~P~ts~~iPLig~ 305 (449)
T KOG3645|consen 284 ---VFLLLVSDKMPPTSSVIPLIGK 305 (449)
T ss_pred ---HHHHHHHhhcCCccCcchHHHH
Confidence 778999999999864 77766
No 7
>PF02931 Neur_chan_LBD: Neurotransmitter-gated ion-channel ligand binding domain ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006202 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This entry presents the extracellular ligand binding domain of these ion channels. This domain forms a pentameric arrangement in the known structure. ; GO: 0005230 extracellular ligand-gated ion channel activity, 0006810 transport, 0016020 membrane; PDB: 1LXH_B 1ABT_B 1TOS_A 1LXG_B 1IDG_B 1TOR_A 1IDH_B 3IGQ_B 3TLU_B 3UU5_A ....
Probab=99.74 E-value=2.5e-17 Score=148.50 Aligned_cols=108 Identities=29% Similarity=0.563 Sum_probs=95.0
Q ss_pred CCCceEEEeeCCeEEEEeccccccccccccCCCCcceeeEeeeeecccccccceEeeecCC-------Cceeeccccccc
Q psy5811 81 SPRASILLINMALTLFCFRLTLTATCKMFLRKFPFDTQTCPLLVGSFGYTSNDVKYKWQSE-------TPVDIEHGLELA 153 (329)
Q Consensus 81 ~~~~~v~V~~dG~V~~~~r~~~~~~C~mdl~~FPFD~Q~C~L~f~S~~y~~~ev~l~~~~~-------~~v~~~~~~~~~ 153 (329)
.+...+.|++||+|.+..++.+++.|+||+.+||||+|+|.|.|+||.|+..++.+.|... ..+....+..++
T Consensus 101 ~~~~~~~v~~~G~V~~~~~~~~~~~C~~d~~~fPfD~q~C~i~~~s~~~~~~~v~l~~~~~~~~~~~~~~~~~~~~~~~~ 180 (217)
T PF02931_consen 101 EPNSNVRVYSDGTVRYSPRFTLTFSCPMDLRDFPFDSQNCSIKFGSWSYNSEEVQLKWENKNPPIDENDEVSLSDFVSNS 180 (217)
T ss_dssp -SSEEEEEETTSEEEEEEEEEEEEEECETTTSSSSSEEEEEEEEEESSSSTTTEEEEESCSSS-TTSSTTTSCTTCETTS
T ss_pred cccccccccccchheeeecccccccccccccccccccceeEEEEecccccccceeeeecccCceeeeeccccHHHccccc
Confidence 3679999999999999999999999999999999999999999999999999999999772 244556678899
Q ss_pred ceeeeeeEEEEeEEeee-cCCc-eeeEEEEEEEEecc
Q psy5811 154 QYALVNMTAIKNKLVTI-GNDV-HSIIQINFQLKRNT 188 (329)
Q Consensus 154 eW~l~~~~~~~~~~~~~-~~g~-ys~l~~~~~LkR~~ 188 (329)
+|++.+.........+. ..+. |+.+.+.|+|+|+|
T Consensus 181 ew~~~~~~~~~~~~~~~~~~~~~ys~l~~~~~l~R~~ 217 (217)
T PF02931_consen 181 EWKIVSVTSTRRETTYGCYNEPTYSMLSFTFTLKRRP 217 (217)
T ss_dssp SEEEEEEEEEEEEEEESTSSSCSEEEEEEEEEEEEST
T ss_pred eEEEEeeEEEEEEEccCCcCCCCEeeEEEEEEEEECc
Confidence 99999988887776654 4555 99999999999986
No 8
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=98.56 E-value=9.9e-11 Score=101.94 Aligned_cols=42 Identities=33% Similarity=0.759 Sum_probs=38.0
Q ss_pred ecchhHHHHhhhheeeeccCCCCCCeEEEEEeeehhhhhhcc
Q psy5811 195 TYVPCSLMVCSSWVSFWIDPDAVPARVSLDVDKQIKQWCRIE 236 (329)
Q Consensus 195 iilP~~llvlLs~lsFwlp~~s~geRislgiT~LLs~t~~~~ 236 (329)
+|+||+++++++|++||+|+++.++|++||||+||+|++++.
T Consensus 1 l~~P~~li~~~s~~~f~~~~~~~~~rv~l~it~lL~~~~~~~ 42 (237)
T PF02932_consen 1 LIIPCILIVVLSWLSFWLPPESGPERVTLGITTLLAMTVFLL 42 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHSTHHHHHHHHHHHHHHHHHHH
T ss_pred CeehHHHHHHHHHhheEeCccccccccccchhHHHHHHHHHh
Confidence 479999999999999999999955999999999999976543
No 9
>TIGR00927 2A1904 K+-dependent Na+/Ca+ exchanger.
Probab=93.06 E-value=0.014 Score=62.86 Aligned_cols=23 Identities=22% Similarity=0.436 Sum_probs=10.9
Q ss_pred eeeEeecchhHHHHhhhheeeec
Q psy5811 190 FFVLQTYVPCSLMVCSSWVSFWI 212 (329)
Q Consensus 190 ~yi~~iilP~~llvlLs~lsFwl 212 (329)
+|.+.+++..+.|.+++++..|+
T Consensus 933 ~y~ltFi~SIiwIsi~SyilV~~ 955 (1096)
T TIGR00927 933 FFVITFLGSIMWIAMFSYLMVWW 955 (1096)
T ss_pred eeeehHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444443
No 10
>TIGR00927 2A1904 K+-dependent Na+/Ca+ exchanger.
Probab=92.11 E-value=0.022 Score=61.38 Aligned_cols=9 Identities=11% Similarity=-0.027 Sum_probs=4.0
Q ss_pred EEEeeehhh
Q psy5811 223 LDVDKQIKQ 231 (329)
Q Consensus 223 lgiT~LLs~ 231 (329)
+|+..++.+
T Consensus 1067 lGivlLvlY 1075 (1096)
T TIGR00927 1067 LGFTMFLLY 1075 (1096)
T ss_pred HHHHHHHHH
Confidence 344444444
No 11
>PF03066 Nucleoplasmin: Nucleoplasmin; InterPro: IPR004301 The nucleophosmin/nucleoplasmin family of chaperones includes nucleophosmin, nucleoplasmin and nucleoplasmin-like proteins. They function as nuclear chaperones which are needed for the proper assembly of nucleosomes and the attainment of proper higher order chromatin structures [].; GO: 0003676 nucleic acid binding; PDB: 2P1B_E 1XB9_I 1XE0_C 1NLQ_A 2VTX_E 1K5J_D 1EJY_N 1EE5_B 3T30_J.
Probab=91.81 E-value=0.062 Score=46.21 Aligned_cols=9 Identities=33% Similarity=0.220 Sum_probs=4.3
Q ss_pred cccceeeee
Q psy5811 19 SSQCHRVVV 27 (329)
Q Consensus 19 ~~~~~~~~~ 27 (329)
+|++|.+..
T Consensus 101 isG~~~~~~ 109 (149)
T PF03066_consen 101 ISGQHLVAM 109 (149)
T ss_dssp EEEEEEEE-
T ss_pred eeCcccccc
Confidence 455665443
No 12
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=86.48 E-value=0.22 Score=49.49 Aligned_cols=38 Identities=13% Similarity=0.098 Sum_probs=22.6
Q ss_pred CeEEEEeccccccccc--cccCCCCcceeeEeeeeecccc
Q psy5811 92 ALTLFCFRLTLTATCK--MFLRKFPFDTQTCPLLVGSFGY 129 (329)
Q Consensus 92 G~V~~~~r~~~~~~C~--mdl~~FPFD~Q~C~L~f~S~~y 129 (329)
..++|.+.......-. +.+...+...+.-...++|...
T Consensus 121 d~~~WtP~~~t~~~~~~~~~~~r~~~~~~~S~sS~~S~~~ 160 (458)
T PF10446_consen 121 DYEFWTPGATTAATSSSHLDVRRRSSHRRSSDSSIESLSS 160 (458)
T ss_pred cceeecccccccccccccccccccccccCCCCCccccccC
Confidence 6788888765444443 5556666665555555555433
No 13
>PF10446 DUF2457: Protein of unknown function (DUF2457); InterPro: IPR018853 This entry represents a family of uncharacterised proteins.
Probab=84.98 E-value=0.18 Score=50.07 Aligned_cols=7 Identities=14% Similarity=0.695 Sum_probs=2.8
Q ss_pred eeeechH
Q psy5811 24 RVVVDDK 30 (329)
Q Consensus 24 ~~~~~~~ 30 (329)
+.++++-
T Consensus 25 KlTi~Dt 31 (458)
T PF10446_consen 25 KLTINDT 31 (458)
T ss_pred cccHHHH
Confidence 3444433
No 14
>KOG0772|consensus
Probab=78.02 E-value=0.52 Score=47.80 Aligned_cols=74 Identities=15% Similarity=0.134 Sum_probs=40.6
Q ss_pred hhhceeeecCccccccccc--cCCCceEEEeeCCeEEEEeccccccccc----cccCCCCccee--eE---eeeeecccc
Q psy5811 61 EQEEEFYTKSPKCLELMLQ--CSPRASILLINMALTLFCFRLTLTATCK----MFLRKFPFDTQ--TC---PLLVGSFGY 129 (329)
Q Consensus 61 ~~~~E~~t~s~~s~~~~~~--~~~~~~v~V~~dG~V~~~~r~~~~~~C~----mdl~~FPFD~Q--~C---~L~f~S~~y 129 (329)
++|+-....-|.+++-++. +..=.-+.+.++|-=.++..+.+++.|- || ..++.+.| -| .+.-..|+-
T Consensus 146 ~~e~~~~~~IP~shEi~l~hgtk~Vsal~~Dp~GaR~~sGs~Dy~v~~wDf~gMd-as~~~fr~l~P~E~h~i~sl~ys~ 224 (641)
T KOG0772|consen 146 DEEESIIKLIPGSHEIQLKHGTKIVSALAVDPSGARFVSGSLDYTVKFWDFQGMD-ASMRSFRQLQPCETHQINSLQYSV 224 (641)
T ss_pred cchhchhhcCCccceEeccCCceEEEEeeecCCCceeeeccccceEEEEeccccc-ccchhhhccCcccccccceeeecC
Confidence 3333444556666665553 1112446688999888888888877772 33 22344433 23 244445555
Q ss_pred cccceE
Q psy5811 130 TSNDVK 135 (329)
Q Consensus 130 ~~~ev~ 135 (329)
+.+.+.
T Consensus 225 Tg~~iL 230 (641)
T KOG0772|consen 225 TGDQIL 230 (641)
T ss_pred CCCeEE
Confidence 666553
No 15
>KOG4156|consensus
Probab=76.32 E-value=0.88 Score=47.33 Aligned_cols=6 Identities=17% Similarity=0.407 Sum_probs=2.5
Q ss_pred ccccCC
Q psy5811 294 INEAEP 299 (329)
Q Consensus 294 ~~~~~~ 299 (329)
+.+++|
T Consensus 890 lkprlp 895 (1329)
T KOG4156|consen 890 LKPRLP 895 (1329)
T ss_pred cccccc
Confidence 444444
No 16
>KOG4156|consensus
Probab=72.76 E-value=0.72 Score=47.93 Aligned_cols=7 Identities=14% Similarity=0.662 Sum_probs=2.7
Q ss_pred cceeeee
Q psy5811 153 AQYALVN 159 (329)
Q Consensus 153 ~eW~l~~ 159 (329)
+.|.+.+
T Consensus 774 ssfEl~G 780 (1329)
T KOG4156|consen 774 SSFELIG 780 (1329)
T ss_pred ccceeec
Confidence 3344433
No 17
>KOG1834|consensus
Probab=71.02 E-value=0.57 Score=48.77 Aligned_cols=9 Identities=11% Similarity=-0.071 Sum_probs=3.9
Q ss_pred echHHHHhh
Q psy5811 27 VDDKRVKKI 35 (329)
Q Consensus 27 ~~~~~~~~~ 35 (329)
|..+++-|+
T Consensus 881 VNPme~~e~ 889 (952)
T KOG1834|consen 881 VNPMEDYEK 889 (952)
T ss_pred ecchHhccc
Confidence 444444444
No 18
>PF14494 DUF4436: Domain of unknown function (DUF4436)
Probab=67.28 E-value=6.3 Score=36.95 Aligned_cols=92 Identities=13% Similarity=0.241 Sum_probs=48.5
Q ss_pred ccccCCCCcceeeEe-eeeecccccccceEeeecCCCceeecccccccceeeeeeEEEEeEEeeecCCceeeEEEEEEEE
Q psy5811 107 KMFLRKFPFDTQTCP-LLVGSFGYTSNDVKYKWQSETPVDIEHGLELAQYALVNMTAIKNKLVTIGNDVHSIIQINFQLK 185 (329)
Q Consensus 107 ~mdl~~FPFD~Q~C~-L~f~S~~y~~~ev~l~~~~~~~v~~~~~~~~~eW~l~~~~~~~~~~~~~~~g~ys~l~~~~~Lk 185 (329)
.=+..+||||+-.-. +.+..+.-+..+-.... ..+...+ ....|++........ + ....+.++++
T Consensus 96 ~G~~~~yPFD~Y~~~~i~v~~~~g~~~~~~~~p---~~v~~~~--s~~gW~i~~~~~~~~------~---~~~~~~i~l~ 161 (256)
T PF14494_consen 96 DGDINNYPFDRYRTDPIRVSAFVGNGDNREPVP---ARVTLTG--SLSGWDISATRVADA------D---GGDGVDITLK 161 (256)
T ss_pred cCCccCCCCcccccceEEEEEEecCCCcccccc---eEEEEEc--ccCCeEEEeeecCCC------C---CceeEEEEEE
Confidence 456789999998877 66654322221111111 1122222 345687765432221 1 5567888889
Q ss_pred eccceeeEeecchhHHHHhhhheeeecc
Q psy5811 186 RNTGFFVLQTYVPCSLMVCSSWVSFWID 213 (329)
Q Consensus 186 R~~~~yi~~iilP~~llvlLs~lsFwlp 213 (329)
|...-..+.+++=. ++.+|+.+++++-
T Consensus 162 Rs~~~~~F~~~i~~-vm~~L~~~al~~a 188 (256)
T PF14494_consen 162 RSRGVLFFALFICL-VMWALATLALFVA 188 (256)
T ss_pred ccCcceehHHHHHH-HHHHHHHHHHHHH
Confidence 98886665444333 3344555555543
No 19
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=64.23 E-value=0.95 Score=43.03 Aligned_cols=11 Identities=18% Similarity=0.048 Sum_probs=6.0
Q ss_pred eeeecCccccc
Q psy5811 65 EFYTKSPKCLE 75 (329)
Q Consensus 65 E~~t~s~~s~~ 75 (329)
.....+|....
T Consensus 74 ~~~~~sP~adt 84 (285)
T PF03896_consen 74 GELKPSPDADT 84 (285)
T ss_pred ccccccCCceE
Confidence 44556665544
No 20
>KOG0338|consensus
Probab=63.16 E-value=2.7 Score=43.09 Aligned_cols=20 Identities=25% Similarity=0.305 Sum_probs=10.5
Q ss_pred chhhhhHHHHHHHHHHHhcc
Q psy5811 300 KVYSTRLFLLTILLRNVFST 319 (329)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~ 319 (329)
+..--|-+++-.|++-.|.+
T Consensus 408 ~re~dRea~l~~l~~rtf~~ 427 (691)
T KOG0338|consen 408 KREGDREAMLASLITRTFQD 427 (691)
T ss_pred ccccccHHHHHHHHHHhccc
Confidence 33334555666666655543
No 21
>PF02459 Adeno_terminal: Adenoviral DNA terminal protein; InterPro: IPR003391 The genome of adenovirus contains a protein covalently bound to the 5' end of each strand of the linear DNA molecule []. Since adenovirus DNA replication is initiated at the termini of the DNA molecule it has been proposed that the terminal protein serves as the primer for initiation of replication. However, the priming function now appears to reside in the precursor form of the terminal protein (pTP) found on the 5' ends of nascent DNA strands replicated in vitro [, ] and as a component of DNA-protein complexes isolated from virions of the protease-deficient adenovirus serotype 2 (Ad2) mutant tsl. The pTP is encoded by the leftward-transcribed strand of the viral genome and comprises part of a transcription unit that also encodes the single-strand DNA binding protein [].; GO: 0003677 DNA binding, 0006260 DNA replication
Probab=58.15 E-value=1.3 Score=45.17 Aligned_cols=39 Identities=15% Similarity=0.035 Sum_probs=29.8
Q ss_pred cccccccCcccceeeeccccCCchhhhhHHHHHHHHHHH
Q psy5811 278 IRHYPLANNEAESVYSINEAEPKVYSTRLFLLTILLRNV 316 (329)
Q Consensus 278 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 316 (329)
+++-=......+..+|++..=|+.|++++.|+++.-|.+
T Consensus 500 ~~~nd~eiDSVelSFR~k~~G~V~~s~nr~Iq~~~rrV~ 538 (548)
T PF02459_consen 500 AALNDEEIDSVELSFRFKLTGPVVFSTNRQIQRNNRRVR 538 (548)
T ss_pred hhcchhhccceEEEEEEeecceEEeccCHHHHHHHHHHH
Confidence 333334455577889999999999999999999887753
No 22
>PF15470 DUF4637: Domain of unknown function (DUF4637)
Probab=50.34 E-value=3.6 Score=35.04 Aligned_cols=7 Identities=14% Similarity=0.434 Sum_probs=3.7
Q ss_pred CeEEEEe
Q psy5811 92 ALTLFCF 98 (329)
Q Consensus 92 G~V~~~~ 98 (329)
|.|.|++
T Consensus 66 gSVSY~P 72 (173)
T PF15470_consen 66 GSVSYCP 72 (173)
T ss_pred Cceeccc
Confidence 5555553
No 23
>PF02459 Adeno_terminal: Adenoviral DNA terminal protein; InterPro: IPR003391 The genome of adenovirus contains a protein covalently bound to the 5' end of each strand of the linear DNA molecule []. Since adenovirus DNA replication is initiated at the termini of the DNA molecule it has been proposed that the terminal protein serves as the primer for initiation of replication. However, the priming function now appears to reside in the precursor form of the terminal protein (pTP) found on the 5' ends of nascent DNA strands replicated in vitro [, ] and as a component of DNA-protein complexes isolated from virions of the protease-deficient adenovirus serotype 2 (Ad2) mutant tsl. The pTP is encoded by the leftward-transcribed strand of the viral genome and comprises part of a transcription unit that also encodes the single-strand DNA binding protein [].; GO: 0003677 DNA binding, 0006260 DNA replication
Probab=49.49 E-value=1.7 Score=44.30 Aligned_cols=10 Identities=30% Similarity=0.069 Sum_probs=5.2
Q ss_pred eeeecCcccc
Q psy5811 65 EFYTKSPKCL 74 (329)
Q Consensus 65 E~~t~s~~s~ 74 (329)
+..+.+++-.
T Consensus 347 eELT~~AR~~ 356 (548)
T PF02459_consen 347 EELTVSARNH 356 (548)
T ss_pred HHhhhhhhhh
Confidence 4455555543
No 24
>KOG2457|consensus
Probab=48.55 E-value=4.4 Score=39.99 Aligned_cols=6 Identities=17% Similarity=-0.147 Sum_probs=2.2
Q ss_pred cccCCc
Q psy5811 295 NEAEPK 300 (329)
Q Consensus 295 ~~~~~~ 300 (329)
.+.+|+
T Consensus 413 e~se~~ 418 (555)
T KOG2457|consen 413 ELSEFV 418 (555)
T ss_pred CcchHH
Confidence 333333
No 25
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=46.90 E-value=2.3 Score=40.40 Aligned_cols=6 Identities=17% Similarity=0.124 Sum_probs=2.7
Q ss_pred EeeCCe
Q psy5811 88 LINMAL 93 (329)
Q Consensus 88 V~~dG~ 93 (329)
+.++|.
T Consensus 107 ftN~g~ 112 (285)
T PF03896_consen 107 FTNKGS 112 (285)
T ss_pred EEeCCC
Confidence 344444
No 26
>KOG0127|consensus
Probab=46.17 E-value=6.1 Score=40.60 Aligned_cols=10 Identities=60% Similarity=1.268 Sum_probs=7.0
Q ss_pred ccCCCCccee
Q psy5811 109 FLRKFPFDTQ 118 (329)
Q Consensus 109 dl~~FPFD~Q 118 (329)
-++|.|||+-
T Consensus 296 FvRNL~fD~t 305 (678)
T KOG0127|consen 296 FVRNLPFDTT 305 (678)
T ss_pred EEecCCcccc
Confidence 3578888854
No 27
>PHA03171 UL37 tegument protein; Provisional
Probab=44.11 E-value=5.3 Score=39.47 Aligned_cols=8 Identities=25% Similarity=0.384 Sum_probs=4.9
Q ss_pred eeeEeeee
Q psy5811 117 TQTCPLLV 124 (329)
Q Consensus 117 ~Q~C~L~f 124 (329)
.++|.|..
T Consensus 217 smnC~lnC 224 (499)
T PHA03171 217 FMNCKLNC 224 (499)
T ss_pred eeeeEEEE
Confidence 36677655
No 28
>COG1614 CdhC CO dehydrogenase/acetyl-CoA synthase beta subunit [Energy production and conversion]
Probab=42.05 E-value=13 Score=36.18 Aligned_cols=7 Identities=57% Similarity=0.710 Sum_probs=2.8
Q ss_pred ceeEEec
Q psy5811 13 GVVSISS 19 (329)
Q Consensus 13 ~~~~~~~ 19 (329)
|.+.|++
T Consensus 327 GF~Gisi 333 (470)
T COG1614 327 GFVGISI 333 (470)
T ss_pred ceeeeee
Confidence 3444443
No 29
>KOG0699|consensus
Probab=40.80 E-value=5 Score=39.38 Aligned_cols=6 Identities=17% Similarity=0.296 Sum_probs=2.4
Q ss_pred Eeecch
Q psy5811 193 LQTYVP 198 (329)
Q Consensus 193 ~~iilP 198 (329)
-+.-+|
T Consensus 410 ~N~~Lp 415 (542)
T KOG0699|consen 410 KNQELP 415 (542)
T ss_pred cccCCC
Confidence 333444
No 30
>PF04712 Radial_spoke: Radial spokehead-like protein
Probab=38.09 E-value=7.6 Score=39.79 Aligned_cols=12 Identities=0% Similarity=-0.017 Sum_probs=8.9
Q ss_pred EeeCCeEEEEec
Q psy5811 88 LINMALTLFCFR 99 (329)
Q Consensus 88 V~~dG~V~~~~r 99 (329)
|.++|++.|..+
T Consensus 343 Il~qGR~~~~~~ 354 (491)
T PF04712_consen 343 ILPQGRCTWYNP 354 (491)
T ss_pred cccCceEeCCCC
Confidence 568899988743
No 31
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional
Probab=32.91 E-value=7.3 Score=37.68 Aligned_cols=6 Identities=33% Similarity=0.756 Sum_probs=2.6
Q ss_pred cceeEE
Q psy5811 12 GGVVSI 17 (329)
Q Consensus 12 ~~~~~~ 17 (329)
||-..+
T Consensus 260 gG~~~~ 265 (319)
T PTZ00248 260 GGDFKV 265 (319)
T ss_pred CCeEEE
Confidence 444444
No 32
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=32.57 E-value=6.8 Score=42.83 Aligned_cols=13 Identities=23% Similarity=0.227 Sum_probs=7.9
Q ss_pred ecccccccccccc
Q psy5811 98 FRLTLTATCKMFL 110 (329)
Q Consensus 98 ~r~~~~~~C~mdl 110 (329)
..+-+++.||-.+
T Consensus 416 ~elPftf~~P~s~ 428 (840)
T PF04147_consen 416 SELPFTFPCPSSH 428 (840)
T ss_pred cCCCceecCCCCH
Confidence 4555667777554
No 33
>PF04712 Radial_spoke: Radial spokehead-like protein
Probab=32.10 E-value=12 Score=38.33 Aligned_cols=20 Identities=15% Similarity=0.414 Sum_probs=8.0
Q ss_pred eeEeeeeecccccccceEeee
Q psy5811 118 QTCPLLVGSFGYTSNDVKYKW 138 (329)
Q Consensus 118 Q~C~L~f~S~~y~~~ev~l~~ 138 (329)
+-+.+.|| |+....+..|.+
T Consensus 436 ~f~niYiG-~G~K~~~~~f~P 455 (491)
T PF04712_consen 436 KFGNIYIG-WGLKNSDENFSP 455 (491)
T ss_pred eEEEEEEe-cCccCCCCCCCC
Confidence 33444443 344444434433
No 34
>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins. Vid27p is a cytoplasmic protein of unknown function, possibly regulates import of fructose-1,6-bisphosphatase into Vacuolar Import and Degradation (Vid) vesicles and is not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase) [, ].
Probab=31.96 E-value=17 Score=39.42 Aligned_cols=12 Identities=33% Similarity=0.528 Sum_probs=7.4
Q ss_pred EEEEeecCcCCC
Q psy5811 240 SYLVLYPSLAPY 251 (329)
Q Consensus 240 ~~l~v~~~llp~ 251 (329)
.||+++...+.-
T Consensus 639 tyLlLi~t~~~~ 650 (794)
T PF08553_consen 639 TYLLLIDTLIKD 650 (794)
T ss_pred ceEEEEEEeeec
Confidence 567766666553
No 35
>PF04147 Nop14: Nop14-like family ; InterPro: IPR007276 Emg1 and Nop14 are novel proteins whose interaction is required for the maturation of the 18S rRNA and for 40S ribosome production [].
Probab=31.94 E-value=7.3 Score=42.61 Aligned_cols=9 Identities=44% Similarity=0.545 Sum_probs=3.4
Q ss_pred hHHHHHHHH
Q psy5811 305 RLFLLTILL 313 (329)
Q Consensus 305 ~~~~~~~~~ 313 (329)
|..+|..++
T Consensus 675 k~~lL~~~l 683 (840)
T PF04147_consen 675 KLSLLATAL 683 (840)
T ss_pred HHHHHHHHH
Confidence 333333333
No 36
>PF02724 CDC45: CDC45-like protein; InterPro: IPR003874 CDC45 is an essential gene required for initiation of DNA replication in Saccharomyces cerevisiae (cell division control protein 45), forming a complex with MCM5/CDC46. Homologs of CDC45 have been identified in human [], mouse and the smut fungus, Melampsora spp., (tsd2 protein) among others.; GO: 0006270 DNA-dependent DNA replication initiation
Probab=30.76 E-value=9.1 Score=40.42 Aligned_cols=29 Identities=10% Similarity=0.202 Sum_probs=19.4
Q ss_pred EEEEEEEeccceeeEeecchhHHHHhhhheeee
Q psy5811 179 QINFQLKRNTGFFVLQTYVPCSLMVCSSWVSFW 211 (329)
Q Consensus 179 ~~~~~LkR~~~~yi~~iilP~~llvlLs~lsFw 211 (329)
.+.|.|=||..-|-...+-|.+.. -+..|
T Consensus 303 e~rl~LlRHWSLydSm~~S~yvas----kL~lW 331 (622)
T PF02724_consen 303 ELRLMLLRHWSLYDSMYHSSYVAS----KLKLW 331 (622)
T ss_pred ccceeeeccCcHHHHHhhchhhHh----hcchh
Confidence 556777888888777777775433 44566
No 37
>PF01056 Myc_N: Myc amino-terminal region; InterPro: IPR012682 The class III basic helix-turn-helix (bHLH) transcription factors have proliferative and apoptotic roles and are characterised by the presence of a leucine zipper adjacent to the bHLH domain. The myc oncogene gene was first discovered in small-cell lung cancer cell lines where it is found to be deregulated []. Although the biochemical function of the gene product is unknown, as a nuclear protein with a short half-life it may play a direct or indirect role in controlling gene expression []. Myc forms a heterodimer with Max, and this complex regulates cell growth through direct activation of genes involved in cell replication []. This entry represents the N-terminal domain found adjacent to the basic helix-loop-helix (bHLH) region (IPR001092 from INTERPRO).; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1EE4_C.
Probab=30.56 E-value=17 Score=35.38 Aligned_cols=11 Identities=18% Similarity=0.226 Sum_probs=0.0
Q ss_pred hhceeeecCcc
Q psy5811 62 QEEEFYTKSPK 72 (329)
Q Consensus 62 ~~~E~~t~s~~ 72 (329)
||-.+.|-.+|
T Consensus 242 EEIDVVTVEkr 252 (329)
T PF01056_consen 242 EEIDVVTVEKR 252 (329)
T ss_dssp -----------
T ss_pred cceEEEEeeec
Confidence 33344444443
No 38
>PHA03171 UL37 tegument protein; Provisional
Probab=29.48 E-value=17 Score=36.01 Aligned_cols=10 Identities=20% Similarity=0.345 Sum_probs=5.1
Q ss_pred eeeechHHHH
Q psy5811 24 RVVVDDKRVK 33 (329)
Q Consensus 24 ~~~~~~~~~~ 33 (329)
-+++|+|.++
T Consensus 58 ~gvi~ge~~~ 67 (499)
T PHA03171 58 HGVIDGENSE 67 (499)
T ss_pred cCcccCCCcc
Confidence 3456665443
No 39
>KOG2395|consensus
Probab=28.76 E-value=27 Score=36.03 Aligned_cols=12 Identities=33% Similarity=0.528 Sum_probs=7.0
Q ss_pred EEEEeecCcCCC
Q psy5811 240 SYLVLYPSLAPY 251 (329)
Q Consensus 240 ~~l~v~~~llp~ 251 (329)
.||+++...+.-
T Consensus 492 tyLlLi~t~~kd 503 (644)
T KOG2395|consen 492 TYLLLIDTLIKD 503 (644)
T ss_pred cEEEEEEEeccc
Confidence 566666655533
No 40
>PF15017 AF1Q: Drug resistance and apoptosis regulator
Probab=25.69 E-value=9.9 Score=29.70 Aligned_cols=10 Identities=20% Similarity=0.275 Sum_probs=3.7
Q ss_pred hhhceeeecC
Q psy5811 61 EQEEEFYTKS 70 (329)
Q Consensus 61 ~~~~E~~t~s 70 (329)
++.+=-.|.|
T Consensus 70 dD~gGWITPs 79 (87)
T PF15017_consen 70 DDGGGWITPS 79 (87)
T ss_pred CCCCccccch
Confidence 3333333333
No 41
>COG5167 VID27 Protein involved in vacuole import and degradation [Intracellular trafficking and secretion]
Probab=25.23 E-value=31 Score=35.64 Aligned_cols=14 Identities=0% Similarity=-0.259 Sum_probs=6.7
Q ss_pred CceEEEeeCCeEEE
Q psy5811 83 RASILLINMALTLF 96 (329)
Q Consensus 83 ~~~v~V~~dG~V~~ 96 (329)
+-+..|..+..|-.
T Consensus 428 n~rsyVtR~n~IGV 441 (776)
T COG5167 428 NERSYVTRGNSIGV 441 (776)
T ss_pred ccceeEeeCCeeee
Confidence 44445555555443
No 42
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=24.81 E-value=25 Score=38.17 Aligned_cols=14 Identities=21% Similarity=0.095 Sum_probs=0.0
Q ss_pred cCCCCcceeeEeee
Q psy5811 110 LRKFPFDTQTCPLL 123 (329)
Q Consensus 110 l~~FPFD~Q~C~L~ 123 (329)
.+-||=+.|.+.-.
T Consensus 732 ~RAfPT~aek~~r~ 745 (787)
T PF03115_consen 732 KRAFPTLAEKERRN 745 (787)
T ss_dssp --------------
T ss_pred hccCCCchhhhhhh
Confidence 35677666665543
No 43
>PF04874 Mak16: Mak16 protein C-terminal region; InterPro: IPR006958 The function of these proteins is unknown. The yeast orthologues have been implicated in cell cycle progression and biogenesis of 60S ribosomal subunits. The Schistosoma mansoni (Blood fluke) Mak16 has been shown to target protein transport to the nucleolus [].
Probab=23.26 E-value=9.1 Score=30.74 Aligned_cols=7 Identities=14% Similarity=0.558 Sum_probs=3.3
Q ss_pred cccccce
Q psy5811 8 NSALGGV 14 (329)
Q Consensus 8 ~~~~~~~ 14 (329)
+.+-|.+
T Consensus 36 ~G~Ygd~ 42 (101)
T PF04874_consen 36 SGTYGDI 42 (101)
T ss_pred cCCcccc
Confidence 3444544
No 44
>KOG0299|consensus
Probab=23.11 E-value=28 Score=35.04 Aligned_cols=10 Identities=0% Similarity=-0.323 Sum_probs=4.4
Q ss_pred eCCeEEEEec
Q psy5811 90 NMALTLFCFR 99 (329)
Q Consensus 90 ~dG~V~~~~r 99 (329)
..|+|.-...
T Consensus 115 ~~Gr~~r~~a 124 (479)
T KOG0299|consen 115 QSGRVRRLVA 124 (479)
T ss_pred hcceeehhhh
Confidence 3455444433
No 45
>PF00183 HSP90: Hsp90 protein; InterPro: IPR001404 Molecular chaperones, or heat shock proteins (Hsps) are ubiquitous proteins that act to maintain proper protein folding within the cell []. They assist in the folding of nascent polypeptide chains, and are also involved in the re-folding of denatured proteins following proteotoxic stress. As their name implies, the heat shock proteins were first identified as proteins that were up-regulated under conditions of elevated temperature. However, subsequent studies have shown that increased Hsp expression is induced by a variety of cellular stresses, including oxidative stress and inflammation. Five major Hsp families have been determined, and are categorized according to their molecular size (Hsp100, Hsp90, Hsp70, Hsp60, and the small Hsps). Hsps are involved in a variety of cellular processes that are ATP-dependent. These include: prevention of protein aggregation, protein degradation, protein trafficking, and maintenance of signalling proteins in a conformation that permits activation. Hsp90 chaperones are unique in their ability to regulate a specific subset of cellular signalling proteins that have been implicated in disease processes, including intracellular protein kinases, steroid hormone receptors, and growth factor receptors [].; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding, 0006950 response to stress; PDB: 3K99_D 2H55_A 3RLP_A 1OSF_A 3R4M_A 1YES_A 1UY9_A 3FT8_A 2YE2_A 2QF6_A ....
Probab=22.94 E-value=11 Score=39.07 Aligned_cols=40 Identities=13% Similarity=-0.115 Sum_probs=18.8
Q ss_pred ceEEEeeCCeEEEEeccccccccccccCCCCcceeeEeeeee
Q psy5811 84 ASILLINMALTLFCFRLTLTATCKMFLRKFPFDTQTCPLLVG 125 (329)
Q Consensus 84 ~~v~V~~dG~V~~~~r~~~~~~C~mdl~~FPFD~Q~C~L~f~ 125 (329)
..+...-+|.+.+..-+-+--.-|+++. -.+.+...+.+.
T Consensus 124 ~~iH~~~eg~~~~~~lLyiP~~~p~~~~--~~~~~~~~ikLY 163 (531)
T PF00183_consen 124 FWIHFNAEGPFEFKSLLYIPKRAPFDLF--ENDKKKNGIKLY 163 (531)
T ss_dssp EEEEEEEESSSEEEEEEEEESS-SCCCC--SSSTT--SEEEE
T ss_pred hheeccccccceeeEEEEeCCCCchhhh--hhhhccccceee
Confidence 3344455677666655555554555543 233444455543
No 46
>KOG2153|consensus
Probab=22.87 E-value=19 Score=37.86 Aligned_cols=11 Identities=27% Similarity=0.528 Sum_probs=4.8
Q ss_pred HHHHHHHHHhc
Q psy5811 308 LLTILLRNVFS 318 (329)
Q Consensus 308 ~~~~~~~~~~~ 318 (329)
+|.+.-+|.|-
T Consensus 457 iLkiVFtiYFr 467 (704)
T KOG2153|consen 457 ILKIVFTIYFR 467 (704)
T ss_pred HHHHHHHHHHH
Confidence 34444444443
No 47
>KOG3803|consensus
Probab=22.55 E-value=35 Score=35.87 Aligned_cols=18 Identities=11% Similarity=-0.049 Sum_probs=7.9
Q ss_pred cchhHHHHhhhheeeecc
Q psy5811 196 YVPCSLMVCSSWVSFWID 213 (329)
Q Consensus 196 ilP~~llvlLs~lsFwlp 213 (329)
+=|.+|.+..+.+.--.|
T Consensus 371 ippeILamhe~vlkcptP 388 (968)
T KOG3803|consen 371 IPPEILAMHENVLKCPTP 388 (968)
T ss_pred CCHHHHHHHHHhhcCCCC
Confidence 344444444444444444
No 48
>KOG1144|consensus
Probab=22.10 E-value=98 Score=33.67 Aligned_cols=15 Identities=20% Similarity=0.426 Sum_probs=8.2
Q ss_pred ccccccCcccceeee
Q psy5811 279 RHYPLANNEAESVYS 293 (329)
Q Consensus 279 ~~~~~~~~~~~~~~~ 293 (329)
..|+++-|.--+-|-
T Consensus 593 tpFivALNKiDRLYg 607 (1064)
T KOG1144|consen 593 TPFIVALNKIDRLYG 607 (1064)
T ss_pred CCeEEeehhhhhhcc
Confidence 346666666544443
No 49
>PF03153 TFIIA: Transcription factor IIA, alpha/beta subunit; InterPro: IPR004855 Transcription factor IIA (TFIIA) is one of several factors that form part of a transcription pre-initiation complex along with RNA polymerase II, the TATA-box-binding protein (TBP) and TBP-associated factors, on the TATA-box sequence upstream of the initiation start site. After initiation, some components of the pre-initiation complex (including TFIIA) remain attached and re-initiate a subsequent round of transcription. TFIIA binds to TBP to stabilise TBP binding to the TATA element. TFIIA also inhibits the cytokine HMGB1 (high mobility group 1 protein) binding to TBP [], and can dissociate HMGB1 already bound to TBP/TATA-box. Human and Drosophila TFIIA have three subunits: two large subunits, LN/alpha and LC/beta, derived from the same gene, and a small subunit, S/gamma. Yeast TFIIA has two subunits: a large TOA1 subunit that shows sequence similarity to the N-terminal of LN/alpha and the C-terminal of LC/beta, and a small subunit, TOA2 that is highly homologous with S/gamma. The conserved regions of the large and small subunits of TFIIA combine to form two domains: a four-helix bundle (helical domain) composed of two helices from each of the N-terminal regions of TOA1 and TOA2 in yeast; and a beta-barrel (beta-barrel domain) composed of beta-sheets from the C-terminal regions of TOA1 and TOA2 []. This entry represents the precursor that yields both the alpha and beta subunits of TFIIA. The TFIIA heterotrimer is an essential general transcription initiation factor for the expression of genes transcribed by RNA polymerase II []. ; GO: 0006367 transcription initiation from RNA polymerase II promoter, 0005672 transcription factor TFIIA complex; PDB: 1NVP_B 1YTF_B 1RM1_C 1NH2_B.
Probab=21.71 E-value=1e+02 Score=30.18 Aligned_cols=95 Identities=12% Similarity=0.237 Sum_probs=0.0
Q ss_pred echHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHhhhhceeeecCccccccccccCCCceEEEeeCCeEEEEecccccccc
Q psy5811 27 VDDKRVKKIKMKEEEEEKEEEEQEEEEEEEEEEEEQEEEFYTKSPKCLELMLQCSPRASILLINMALTLFCFRLTLTATC 106 (329)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~~t~s~~s~~~~~~~~~~~~v~V~~dG~V~~~~r~~~~~~C 106 (329)
+|+..+....++++..++.+|++|+.+.++++++..+++-..-.............. .+-.|++..--..++.+
T Consensus 273 ~DG~~d~~~~e~~~~~~~~d~d~~~~~~~~~~~~~~~~~~~~~~dd~~~~~~~~~~~------~~~~~~c~~~kv~r~k~ 346 (375)
T PF03153_consen 273 LDGAGDDSDDEEDDDDDDDDEDDEDKDKDEDDEDAINSDLDDSDDDVSDEDDEDDFD------TDNVVLCQYDKVTRVKN 346 (375)
T ss_dssp -----------------------------------------------B-------ST------TS-EEEEEEEEEEEETT
T ss_pred ccCCCCCccccccccccccccccccccccccccccccCCcCCccccccccccccccC------cCCEEEEEeeccccccc
Q ss_pred ccccCCCCcceeeEeeeeecccccccceEee
Q psy5811 107 KMFLRKFPFDTQTCPLLVGSFGYTSNDVKYK 137 (329)
Q Consensus 107 ~mdl~~FPFD~Q~C~L~f~S~~y~~~ev~l~ 137 (329)
. -.|.|+=|--..++.+..|.
T Consensus 347 ~----------wk~~lk~g~~~~~~~d~~f~ 367 (375)
T PF03153_consen 347 K----------WKCTLKDGIMHINGKDYVFQ 367 (375)
T ss_dssp E----------EEEEEEEEEEEETTEEEEEE
T ss_pred e----------eEEEeeeeEEEECCeEEEEe
No 50
>KOG4264|consensus
Probab=21.69 E-value=9.8 Score=38.93 Aligned_cols=19 Identities=21% Similarity=-0.099 Sum_probs=10.3
Q ss_pred cCCchhhhhHHHHHHHHHH
Q psy5811 297 AEPKVYSTRLFLLTILLRN 315 (329)
Q Consensus 297 ~~~~~~~~~~~~~~~~~~~ 315 (329)
+.|+.|+.|..=-+-+-|+
T Consensus 443 ~ap~~~s~~~~~q~ea~~~ 461 (694)
T KOG4264|consen 443 RAPSHQSDRNDDQFEAHRR 461 (694)
T ss_pred cccccccccchHHHHHHHH
Confidence 4566666665544444433
No 51
>PF00183 HSP90: Hsp90 protein; InterPro: IPR001404 Molecular chaperones, or heat shock proteins (Hsps) are ubiquitous proteins that act to maintain proper protein folding within the cell []. They assist in the folding of nascent polypeptide chains, and are also involved in the re-folding of denatured proteins following proteotoxic stress. As their name implies, the heat shock proteins were first identified as proteins that were up-regulated under conditions of elevated temperature. However, subsequent studies have shown that increased Hsp expression is induced by a variety of cellular stresses, including oxidative stress and inflammation. Five major Hsp families have been determined, and are categorized according to their molecular size (Hsp100, Hsp90, Hsp70, Hsp60, and the small Hsps). Hsps are involved in a variety of cellular processes that are ATP-dependent. These include: prevention of protein aggregation, protein degradation, protein trafficking, and maintenance of signalling proteins in a conformation that permits activation. Hsp90 chaperones are unique in their ability to regulate a specific subset of cellular signalling proteins that have been implicated in disease processes, including intracellular protein kinases, steroid hormone receptors, and growth factor receptors [].; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding, 0006950 response to stress; PDB: 3K99_D 2H55_A 3RLP_A 1OSF_A 3R4M_A 1YES_A 1UY9_A 3FT8_A 2YE2_A 2QF6_A ....
Probab=21.23 E-value=26 Score=36.38 Aligned_cols=7 Identities=14% Similarity=0.069 Sum_probs=3.3
Q ss_pred eEEeccc
Q psy5811 15 VSISSSQ 21 (329)
Q Consensus 15 ~~~~~~~ 21 (329)
|++|+.-
T Consensus 19 i~~PI~l 25 (531)
T PF00183_consen 19 ISFPIYL 25 (531)
T ss_dssp SSSEEEE
T ss_pred cccceeE
Confidence 4455543
No 52
>PF14153 Spore_coat_CotO: Spore coat protein CotO
Probab=21.20 E-value=1.6e+02 Score=26.21 Aligned_cols=14 Identities=7% Similarity=-0.038 Sum_probs=7.0
Q ss_pred CCCceEEEeeCCeE
Q psy5811 81 SPRASILLINMALT 94 (329)
Q Consensus 81 ~~~~~v~V~~dG~V 94 (329)
+|...|.|--+|..
T Consensus 133 lp~i~C~i~t~~~~ 146 (185)
T PF14153_consen 133 LPPIKCEIETKDKS 146 (185)
T ss_pred CCCCceEEEeCCce
Confidence 45555555554443
No 53
>PF08553 VID27: VID27 cytoplasmic protein; InterPro: IPR013863 This entry represents fungal and plant proteins and contains many hypothetical proteins. Vid27p is a cytoplasmic protein of unknown function, possibly regulates import of fructose-1,6-bisphosphatase into Vacuolar Import and Degradation (Vid) vesicles and is not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase) [, ].
Probab=21.09 E-value=26 Score=38.12 Aligned_cols=11 Identities=0% Similarity=0.069 Sum_probs=6.7
Q ss_pred ccccceeeeee
Q psy5811 150 LELAQYALVNM 160 (329)
Q Consensus 150 ~~~~eW~l~~~ 160 (329)
.-..+|++..-
T Consensus 515 KVV~eW~~~~~ 525 (794)
T PF08553_consen 515 KVVEEWKVHDD 525 (794)
T ss_pred cEEEEeecCCC
Confidence 34567777653
No 54
>KOG4364|consensus
Probab=21.03 E-value=14 Score=38.88 Aligned_cols=38 Identities=21% Similarity=0.450 Sum_probs=0.0
Q ss_pred HHhhhhhhhHHHHHHHHHHHHHHHHHHH-hhhhceeeec
Q psy5811 32 VKKIKMKEEEEEKEEEEQEEEEEEEEEE-EEQEEEFYTK 69 (329)
Q Consensus 32 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~E~~t~ 69 (329)
+.+++|+|+.-|.=-..|.+++++.||+ ||++..||+.
T Consensus 523 SDeEWEEEepGESlS~sEddedd~~eEd~edEdDgffVP 561 (811)
T KOG4364|consen 523 SDEEWEEEEPGESLSDSEDDEDDSLEEDCEDEDDGFFVP 561 (811)
T ss_pred CcccccccCCCccccccccccccccccccccccCCeecC
No 55
>KOG4101|consensus
Probab=20.93 E-value=77 Score=27.11 Aligned_cols=14 Identities=0% Similarity=0.010 Sum_probs=10.3
Q ss_pred ceEEEeeCCeEEEE
Q psy5811 84 ASILLINMALTLFC 97 (329)
Q Consensus 84 ~~v~V~~dG~V~~~ 97 (329)
-.|+|.--|.|+..
T Consensus 38 ePvviRG~GniTVF 51 (175)
T KOG4101|consen 38 EPVVIRGAGNITVF 51 (175)
T ss_pred CCeEEeccCceEEE
Confidence 46778888888754
Done!